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omerwe
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polyfun
PolyFun (POLYgenic FUNctionally-informed fine-mapping)
MIT License
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Issue when munging the stats
#107
mkoromina
closed
2 years ago
4
Error when running polyfun with custom created annotations
#106
mkoromina
closed
2 years ago
8
Error in step "Estimating functional enrichment using S LDSC"
#105
KPIYUSHA7
closed
2 years ago
2
Error when running polyfun with multiple custom annotations
#104
freg1086
closed
2 years ago
9
Error when computing LDscores with the usage of plink files
#103
mkoromina
closed
2 years ago
5
Compute LD scores with pre-downloaded UKBB LD matrices
#102
mkoromina
closed
2 years ago
4
Removal of variants from custom annotation LD scores that are in the baseline annotations
#101
gbloeb
closed
2 years ago
2
missing variants in 'weights.UKB.'
#100
gbloeb
closed
2 years ago
2
Custom Annotations, common and lowfreq
#99
gbloeb
closed
2 years ago
1
Update conda environment for Python 3.8
#98
jdblischak
closed
2 years ago
1
Remove deprecation warnings from numpy 1.20.0
#97
jdblischak
closed
2 years ago
4
Version bumps
#96
bschilder
closed
2 years ago
2
Add backcompatibility for old arguments
#95
bschilder
closed
2 years ago
2
annotation files must be perfectly aligned
#94
RyanLongchamps
closed
2 years ago
4
New flag to **not** sort fine-mapping results by PIP
#93
jdblischak
closed
2 years ago
1
max_num_causal=1
#92
gbloeb
closed
2 years ago
1
Run PolyFun with L2-regularized S-LDSC warnings
#91
gbloeb
closed
2 years ago
1
Use np.float64 to fix issue reading cached LD files
#90
jdblischak
closed
2 years ago
1
Install polyfun on mac in Conda environment, bgen install error
#89
gbloeb
closed
2 years ago
2
Support for merging SuSiE R object results with PolyFun table
#88
jdblischak
closed
2 years ago
1
ValueError: The following plink command failed
#87
dietina101
closed
2 years ago
1
Install bgen from conda-forge?
#86
jdblischak
closed
2 years ago
6
Expose SuSiE arg max_iter as --susie-max-iter
#85
jdblischak
closed
2 years ago
2
FINEMAP CS coverage
#84
Ojami
closed
2 years ago
4
fix susie allele order
#83
zhilizheng
closed
2 years ago
0
Error : Cannot find file with extension 'bcor'! When Running FINEMAP with finemapper.py
#82
johnacurtin
closed
2 years ago
28
some discrepancy between original LDSC-S and polyfun LDSC in enrichment analysis?
#81
Ojami
closed
2 years ago
2
Polypred gives 0 weights for finemap effects
#80
zhilizheng
closed
2 years ago
10
Warning messages test_polyfun.py
#79
gbloeb
closed
2 years ago
9
Overlapping regions in create_finemapper_jobs
#78
Ojami
closed
2 years ago
5
A typo in wiki
#77
Ojami
closed
2 years ago
1
Approaches 1 and 2: when are they inconsistent?
#76
Ojami
closed
2 years ago
4
Incorrectly missing SNPs when assigning bins
#75
RyanLongchamps
closed
2 years ago
3
Error while running polyfun with compute-h2-L2
#74
freg1086
closed
2 years ago
5
Interpreting SNPs in credible set = 0
#73
teresa-sansan
closed
2 years ago
3
Difference among baseline model versions
#72
zhilizheng
closed
3 years ago
2
Updates to HESS implementation
#71
jdblischak
closed
3 years ago
14
Some questions about the modified HESS estimate
#70
jdblischak
closed
3 years ago
3
Enable --allow-swapped-indel-alleles for SuSiE
#69
jdblischak
closed
3 years ago
1
finemapper.py BGEN files
#68
zhangpicb
closed
2 years ago
7
Flag to allow swapped indel alleles
#67
jdblischak
closed
3 years ago
1
Feature request: flag to control how to process indels
#66
jdblischak
closed
3 years ago
4
Pipeline for summary based prediction. (PolyPredR)
#65
zhilizheng
closed
3 years ago
1
Support to skip single SNP regions when genome-wide fine-mapping
#64
jdblischak
closed
3 years ago
1
LD file derived from a plink file are wrong
#63
came203
closed
2 years ago
14
ModuleNotFoundError: No module named 'bitarray' error
#62
cmlakhan
closed
3 years ago
4
Add option to save FINEMAP files to a specific output directory
#61
jdblischak
closed
3 years ago
1
Flipping Z score in extract_snpvar
#60
Zepeng-Mu
closed
3 years ago
2
Unable to handle duplicated SNP OR better error message when duplicates found in extract_snpvar.py
#59
Zepeng-Mu
closed
3 years ago
2
PIP=0 for all variants
#58
nickhir
closed
3 years ago
1
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